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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 | <html><head><meta http-equiv="Content-Type" content="text/html; charset=ISO-8859-1"><title>mia-3deval-transformquantity</title><link rel="stylesheet" type="text/css" href="progref.css"><meta name="generator" content="DocBook XSL Stylesheets V1.79.1"><link rel="home" href="index.html" title="Mia Program Reference"><link rel="up" href="SecToolsfortheAnalysisof3Dimageseries.html" title="Tools for the Analysis of 3D image series"><link rel="prev" href="SecToolsfortheAnalysisof3Dimageseries.html" title="Tools for the Analysis of 3D image series"><link rel="next" href="Secmia3dseriestrackintensity.html" title="mia-3dseries-track-intensity"></head><body bgcolor="white" text="black" link="#0000FF" vlink="#840084" alink="#0000FF"><div class="navheader"><table width="100%" summary="Navigation header"><tr><th colspan="3" align="center">mia-3deval-transformquantity</th></tr><tr><td width="20%" align="left"><a accesskey="p" href="SecToolsfortheAnalysisof3Dimageseries.html">Prev</a> </td><th width="60%" align="center">Tools for the Analysis of 3D image series</th><td width="20%" align="right"> <a accesskey="n" href="Secmia3dseriestrackintensity.html">Next</a></td></tr></table><hr></div><div class="section"><div class="titlepage"><div><div><h3 class="title"><a name="Secmia3devaltransformquantity"></a>mia-3deval-transformquantity</h3></div></div></div><h4><a name="idp12920"></a>Sysnopis:</h4><div class="cmdsynopsis"><p><code class="command">mia-3deval-transformquantity</code> {-o <em class="replaceable"><code>string</code></em>} {-t <em class="replaceable"><code>io</code></em>} [
<em class="replaceable"><code>options</code></em>
...]</p></div><h4><a name="idp12929"></a>Description:</h4><p>Get derivative a transformation obtained by by using image registration for any given positions in 3D. The position data is given in CSV format:
id;time;x;y;z;reserved
The output data will be stored in a binary file with an ascii header describing the data. An example header is given below:
MIA
tensorfield {
dim=3 #number of dimensions of the data
components=13 #number of components per element
component_description=vector3,scalar,matrix3x3 #interpretation of components
elements=20 #number of elements in file
interpretation=strain #interpretation of elements (strain|derivative)
style=sparse #storage style (sparse|grid)
repn=float32 #representation of values
size=1000 1000 200 #grid size of the transformation
endian=low #endianess of binary data (low|big)
}
This example header has to be interpreted like follows: three-dimensional data, each entry consists of 13 values the values etry consists of a 3D vector, a scalar, and a 3x3 matrix (saved in row-major format).The data records represent strain tensors, and only a sparse set of points is given. The values are given as single floating point (32 bit). The original transformation field corresponds to images of 1000x1000x200 voxels and the binary data is stored in low endian format.</p><h4><a name="idp12931"></a>Options:</h4><h4><a name="idp12932"></a>
File-IO</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">-i, --in-file=(input); string</span></dt><dd><p>input point set, if this parameter is given a sparse evaluation of the quantity will be done, otherwise the quantity is evaluated for each grid point of the transformation range.</p></dd><dt><span class="term">-o, --out-file=(output, required); string</span></dt><dd><p>output strains file, for a format description see above.</p></dd><dt><span class="term">-t, --transformation=(input, required); io</span></dt><dd><p>transformation of which the quantity will be evaluated.. For supported file types see <a class="xref" href="SecPlugintype3dtransformio.html" title="Plugin type: 3dtransform/io">Plugin type: 3dtransform/io</a></p></dd></dl></div><h4><a name="idp12947"></a>
Parameters</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">-q, --quantity=strain; dict</span></dt><dd><p>Specify the quantity to be evaluated at the given points</p><div class="informaltable"><table class="informaltable" border="0"><colgroup><col class="c1"><col class="c2"></colgroup><tbody><tr><td align="left" valign="top">derivative:</td><td align="left" valign="top">Evaluate the transformation derivative at the given points</td></tr><tr><td align="left" valign="top">strain:</td><td align="left" valign="top">Evaluate the strain tensor at the given points</td></tr></tbody></table></div></dd></dl></div><h4><a name="idp12964"></a>Help & Info</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">-V, --verbose=warning; dict</span></dt><dd><p>verbosity of output, print messages of given level and higher priorities. Supported priorities starting at lowest level are:</p><div class="informaltable"><table class="informaltable" border="0"><colgroup><col class="c1"><col class="c2"></colgroup><tbody><tr><td align="left" valign="top">info:</td><td align="left" valign="top">Low level messages</td></tr><tr><td align="left" valign="top">trace:</td><td align="left" valign="top">Function call trace</td></tr><tr><td align="left" valign="top">fail:</td><td align="left" valign="top">Report test failures</td></tr><tr><td align="left" valign="top">warning:</td><td align="left" valign="top">Warnings</td></tr><tr><td align="left" valign="top">error:</td><td align="left" valign="top">Report errors</td></tr><tr><td align="left" valign="top">debug:</td><td align="left" valign="top">Debug output</td></tr><tr><td align="left" valign="top">message:</td><td align="left" valign="top">Normal messages</td></tr><tr><td align="left" valign="top">fatal:</td><td align="left" valign="top">Report only fatal errors</td></tr></tbody></table></div></dd><dt><span class="term">--copyright=(); bool</span></dt><dd><p>print copyright information</p></dd><dt><span class="term">-h, --help=(); bool</span></dt><dd><p>print this help</p></dd><dt><span class="term">-?, --usage=(); bool</span></dt><dd><p>print a short help</p></dd><dt><span class="term">--version=(); bool</span></dt><dd><p>print the version number and exit</p></dd></dl></div><h4><a name="idp13015"></a>Processing</h4><div class="variablelist"><dl class="variablelist compact"><dt><span class="term">--threads=-1; int</span></dt><dd><p>Maxiumum number of threads to use for processing,This number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation).Maxiumum number of threads to use for processing,This number should be lower or equal to the number of logical processor cores in the machine. (-1: automatic estimation).</p></dd></dl></div><h4><a name="idp13021"></a>Example:</h4><p>Derivative of the transformation change.v3df for each point given in input.csv are evaluated and written to output.s.</p><pre class="screen">mia-3deval-transformquantity -i input.csv -o output.s --transformation change.v3df</pre><h4><a name="idp13024"></a>Author(s):</h4><p>Gert Wollny</p></div><div class="navfooter"><hr><table width="100%" summary="Navigation footer"><tr><td width="40%" align="left"><a accesskey="p" href="SecToolsfortheAnalysisof3Dimageseries.html">Prev</a> </td><td width="20%" align="center"><a accesskey="u" href="SecToolsfortheAnalysisof3Dimageseries.html">Up</a></td><td width="40%" align="right"> <a accesskey="n" href="Secmia3dseriestrackintensity.html">Next</a></td></tr><tr><td width="40%" align="left" valign="top">Tools for the Analysis of 3D image series </td><td width="20%" align="center"><a accesskey="h" href="index.html">Home</a></td><td width="40%" align="right" valign="top"> mia-3dseries-track-intensity</td></tr></table></div></body></html>
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